HsaINT0070851 @ hg19
Intron Retention
Gene
ENSG00000169347 | GP2
Description
glycoprotein 2 (zymogen granule membrane) [Source:HGNC Symbol;Acc:4441]
Coordinates
chr16:20328535-20329752:-
Coord C1 exon
chr16:20329507-20329752
Coord A exon
chr16:20328698-20329506
Coord C2 exon
chr16:20328535-20328697
Length
809 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
TGCCCCTGTCACCCTCCCAGCTG
3' ss Score
7.88
Exon sequences
Seq C1 exon
TTCCCTGAACGTCAGTGTGGACGGGAATGGAGAGTTCATTGTCAGGATGGCCCTCTTCCAAGACCAGAACTACACGAATCCTTACGAAGGGGATGCAGTTGAACTGTCTGTTGAGTCCGTGCTGTATGTGGGTGCCATCTTGGAACAAGGGGACACCTCCCGGTTTAACCTGGTGTTGAGGAACTGCTATGCCACCCCCACTGAAGACAAGGCTGACCTTGTGAAGTATTTCATCATCAGAAACAG
Seq A exon
GTAACGAGCAATTCTGGAATTATCATTTGGCCTTACTAACGTTTACAGGAAAGTGTTCATCTCATCCATCCCCAGCAGACGTGTAAGTTGTACTACATATCATAACCACAATCTTTGACCCAGAAATATCACTCCTGAGATTTTAGCCTAAAATATTAATACTAAACAGGTGGGCAGGGTAAATAAATGTCAATATTTTCCATTTCAATATCGTTGATAACTTTGGCAACAGGCTGATTGTTCAAAAATAGGGAATCAATTTGGTAGTGATGGATTATTACACAGAAGTGAACACTGGTCAATATGAAAACAATATGATAAATGTTGTGGGGTGAAATATCATTAAACATGCCCGGCTGACAAAAACAAGGGAAAAATGCATTTCTATAGATCATGATTTAAATTATAGTAATAATCCTAGCTAATATTTGTCATTGAGCTATGGCACATTAGCTATGTGCCAAGCAATATGTGGATTATCTGATTAAATGCTCACATCAGTCTCATAAAGTGTATATTACTGTCTCCACTTTACAGATAAGAAAAGTAAGGTTCAGTAAGGATGAGTAACCTGCCCATAATCACTTAGCTAGAACGTGGGTCAGGCTACAGTATAAAACCAGTCTGTTTCACTCCAGAGACTGTGCCCTCAAATAATTTAAGCCATGTGCGCTTATGGATAACATCTTGGAGGAAACAGAGGAACAGAAAAAGTCCACGTTATCATGATGGAGGGAACCCGAGGGACTCTTTAATTTTCTCCACTGCTGTTTTTAGAAGTTACACCTTTGCCCCTGTCACCCTCCCAG
Seq C2 exon
CTGCTCAAATCAACGTGATTCCACCATCCACGTGGAGGAGAATGGGCAGTCCTCGGAAAGCCGGTTCTCAGTTCAGATGTTCATGTTTGCTGGACATTATGACCTAGTTTTCCTGCATTGTGAGATTCATCTCTGTGATTCTCTTAATGAACAGTGCCAGCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169347-GP2:NM_001007242:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.127
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=FE(32.4=100)
A:
NA
C2:
PF0010018=Zona_pellucida=FE(21.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCCTGAACGTCAGTGTGGA
R:
TGTCCAGCAAACATGAACATCTGA
Band lengths:
342-1151
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)